miRNA: 3'- ucCCGcuCGUUGGGAUUGCGGCUGCA- -5'
miRNA: 3'- uCCC-GCUCGu---UGGGa----UUGCgGCUGCa -5'
miRNA: 3'- ucCCGCUCGUUGG-GAu----UG-CGGCUGCa -5'
miRNA: 3'- -UCCCGCuCGU----UGGg--AUugCGGCUGCA- -5'
miRNA: 3'- -UCCCGCUCGUUGGGAUUGCGGCUGCA- -5'
Results 1 - 5 of 5 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 16579 | 3' | -57.8 | NC_004117.1 | + | 45740 | 0.66 | 0.820543 |
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Target: 5'- -cGGU--GCGGCCUUGAUGUCGGCGUa -3' miRNA: 3'- ucCCGcuCGUUGGGAUUGCGGCUGCA- -5' |
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| 16579 | 3' | -57.8 | NC_004117.1 | + | 42009 | 0.67 | 0.77633 |
|
Target: 5'- uGGGaCGAGCuguuGCCCgauggAACG-CGACGa -3' miRNA: 3'- uCCC-GCUCGu---UGGGa----UUGCgGCUGCa -5' |
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| 16579 | 3' | -57.8 | NC_004117.1 | + | 98711 | 0.69 | 0.659525 |
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Target: 5'- -uGGCGAGCGGCCuCUucuacACuGCCGGCGc -3' miRNA: 3'- ucCCGCUCGUUGG-GAu----UG-CGGCUGCa -5' |
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| 16579 | 3' | -57.8 | NC_004117.1 | + | 132982 | 0.7 | 0.629267 |
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Target: 5'- gAGGGUG-GCAauauGCUacaUAugGCCGGCGUg -3' miRNA: 3'- -UCCCGCuCGU----UGGg--AUugCGGCUGCA- -5' |
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| 16579 | 3' | -57.8 | NC_004117.1 | + | 7350 | 1.06 | 0.003114 |
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Target: 5'- uAGGGCGAGCAACCCUAACGCCGACGUc -3' miRNA: 3'- -UCCCGCUCGUUGGGAUUGCGGCUGCA- -5' |
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Note:
When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.
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